Re-evaluation of the phylogenetic relationships and species delimitation of two closely related families (Lamiaceae and Verbenaceae) using two DNA barcode markers

Oyebanji, Oyetola O.; Chukwuma, Emmanuel Chukwudi; Bolarinwa, K. A.; Adejobi, Oluwaniyi Isaiah; Adeyemi, Sherif Babatunde; Ayoola, Adeola O.

doi:10.1007/s12038-020-00061-2

Cited by 6 publications

(4 citation statements)

References 83 publications

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“…These results indicated that multi-region sampling can improve the resolution of the analysis. In addition, two protein-coding genes (rpoB and rbcL), which were considered as having a high level of variability in angiosperms, have been recommended and used for phylogenetic studies (Chase et al 2007;Okoth et al 2016;Uchoi et al 2016;Sha et al 2017;Oyebanji et al 2020). They were also used for understanding the phylogenetic relationships and diversity in subgenus Cerasus (Jung and Oh.…”

Section: Discussionmentioning

confidence: 99%

Comparative chloroplast genomes of Prunus subgenus Cerasus (Rosaceae): insights into sequence variations and phylogenetic relationships

Yan

et al. 2021

Tree Genetics & Genomes

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Prunus subgenus Cerasus is a large and diverse genus. Its botanical classification has long been controversial and complicated. Molecular markers derived from the chloroplast genome may provide useful tools for phylogenetic resolution and taxonomic study in Prunus species. Thus, we compared chloroplast genomes of 23 Prunus species to identify sequences with high variation levels. The repeated sequences (RSs) and two types of sequence variation, comprising divergent homologous regions and short sequence repeats (SSRs), were identified. The species with the highest number of RSs was P. emarginata (60), whereas P. campanulata contained the highest amount of SSRs (70). In contrast, P. dictyoneura and P. yedoensis contained the lowest number of RSs (37) and SSRs (46), respectively. Out of these homologous SSRs, 11 were shared in the 23 species, and seven of them showed variations. A total of 203 homologous regions were identified. Out of these, 20 regions (19 IGSs and one intron) showed a high variation from 6.75 to 19.31%. The phylogenetic tree which was inferred based on 19 highly variable regions showed a topology similar to the one obtained using the whole chloroplast genome. We conclude that the seven variable SSRs and the 20 highly variable regions may potentially be convenient as molecular markers for phylogenetic and population genetics studies in subgenus Cerasus species. In addition, the molecular phylogenetic position of P. clarofolia was inferred based on the 19 highly variable regions.

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Section: Discussionmentioning

confidence: 99%

Comparative chloroplast genomes of Prunus subgenus Cerasus (Rosaceae): insights into sequence variations and phylogenetic relationships

Yan

et al. 2021

Tree Genetics & Genomes

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“…trnL-trnF, rbcL, matK DNA markers data use to discriminate the species, provide increased phylogenetic resolutions often use to reveal the phylogenetic relationships within Lamiaceae family [21][22][23].…”

Section: Its1_18s Its4_26smentioning

confidence: 99%

Assessment of plant species diversity (Lamiaceae Lindle.) in Uzbekistan based on DNA barcoding

Никитина¹,

Beshko²,

Omarov³

2022

IOP Conf. Ser.: Earth Environ. Sci.

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Biological diversity preservation is important concept in modern science and environmental policy of Uzbekistan, improving the status of global biodiversity. Flora of Uzbekistan accounts over 4380 species of vascular plants. 378 taxa representing approximately 9% of currently recognized species diversity of Uzbekistan are considered as a national endemics. The present study aimed at species identification and inventory of wild, rare and endangered plant species based on molecular genetic techniques. For effective species identification and high results reliability, the genotyping of three-four loci of the combinations nuclear and chloroplast DNA-barcodes was performed for all studied species. The genotyping of marker sequences ITS, rbcL, trnL-trnF, matK for Dracocephalum adylovii I.I. Malzev is conducted the first time in Uzbekistan. The reliable similarity in the BLAST database is determined at the genus taxonomic level. 78 consensus nucleotide sequences were obtained for Lamiaceae species. The results of molecular phylogenetic analysis based on marker sequence encoding the matK fragment are presented for representative of three subfamilies: Lamioideae, Nepetoideae, Scutellarioideae recorded in the flora of Uzbekistan. Currently, the solution of biological diversity preservation is global. The possibility of successful application of DNA-barcoding for ecological monitoring is demonstrated.

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“…As a result, only one variety is used in traditional medicine, specifically, V1. Ribulose-biphosphate carboxylase (rbcL) gene is the DNA barcode markers with better species discriminatory power than maturase K (matK) gene for the Lamiaceae 40 . Three varieties of Datura can be identified using the rbcL barcode 41 .…”

Section: Genetic Studymentioning

confidence: 99%

Compound Analysis and Genetic Study of Selected Plectranthus scutellarioides Varieties from Indonesia

Astuti¹,

Perdana²,

Natzir³

et al. 2021

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Re-evaluation of the phylogenetic relationships and species delimitation of two closely related families (Lamiaceae and Verbenaceae) using two DNA barcode markers

Cited by 6 publications

References 83 publications

Comparative chloroplast genomes of Prunus subgenus Cerasus (Rosaceae): insights into sequence variations and phylogenetic relationships

Comparative chloroplast genomes of Prunus subgenus Cerasus (Rosaceae): insights into sequence variations and phylogenetic relationships

Assessment of plant species diversity (Lamiaceae Lindle.) in Uzbekistan based on DNA barcoding

Compound Analysis and Genetic Study of Selected Plectranthus scutellarioides Varieties from Indonesia

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